TABLE 2.

Comparison of phylogenetic data in concatenated supermatrices from exonic target regions (i.e., exons) and the exonic target and flanking regions for the seven genera with at least four samples. In the locus alignments prior to concatenation, if a sample had more than one sequence, all copies for that sample were removed, and all columns in the alignment with fewer than four nucleotides were removed.

				Probe region only		Probe and flanking regions
Genus	Lineage	Samples	Loci	Alignment (bp)	Variable characters	Alignment (bp)	Variable characters
Aulacomnium	Moss	4	369	67,739	2190	377,479	25,649
Dicranum	Moss	7	382	70,000	1214	388,915	11,965
Dryopteris	Fern	5	203	44,303	2619	79,832	6979
Elaphoglossum	Fern	8	373	71,759	1695	176,667	6379
Lophosoria	Fern	4	365	69,239	566	193,704	2423
Phaeoceros	Hornwort	8	379	71,806	3128	237,677	18,795
Sphagnum	Moss	10	391	71,186	3124	415,123	34,349